SMTL ID : 4i8p.1

Crystal structure of aminoaldehyde dehydrogenase 1a from Zea mays (ZmAMADH1a)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 28 residues within 4Å: Chain A: I.175, T.176, P.177, W.178, N.179, M.184, K.202, P.203, S.204, E.205, G.235, G.239, A.240, F.253, T.254, G.255, S.256, T.259, K.262, I.263, E.277, L.278, G.279, C.311, E.410, F.412, L.438, W.476 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:P.177, A:T.254 Hydrogen bonds: A:T.176, A:T.176, A:W.178, A:K.202, A:E.205, A:S.256, A:T.259, A:T.259, A:E.277, A:E.277, A:E.410 Water bridges: A:G.235, A:G.235, A:S.243, A:S.256, A:F.257, A:E.410 NAD.5: 29 residues within 4Å: Chain B: I.175, T.176, P.177, W.178, N.179, M.184, W.187, K.202, P.203, S.204, E.205, G.235, G.239, A.240, F.253, T.254, G.255, S.256, T.259, K.262, I.263, E.277, L.278, G.279, C.311, E.410, F.412, L.438, W.476 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:P.177, B:T.254 Hydrogen bonds: B:T.176, B:W.178, B:K.202, B:E.205, B:S.256, B:T.259, B:E.277, B:E.410 Water bridges: B:W.178, B:S.243, B:F.257, B:T.259, B:T.259, B:K.262, B:K.262, B:S.266, B:E.410, B:E.410

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 3 residues within 4Å: Chain A: V.45, D.116, L.206 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.116, A:L.206 NA.6: 3 residues within 4Å: Chain B: V.45, D.116, L.206 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.45

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: L.42, P.43, E.205, L.206, L.234 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.43 Water bridges: A:V.45

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 7 residues within 4Å: Chain A: Y.180, W.187, W.305, C.311, S.312, C.470, W.476 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.312 Water bridges: A:S.312, A:S.312 EDO.8: 7 residues within 4Å: Chain B: Y.180, W.187, W.305, C.311, S.312, C.470, W.476 2 PLIP interactions: 2 interactions with chain B Water bridges: B:Y.180, B:S.312

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 5 residues within 4Å: Chain B: K.370, I.376, G.379, G.380, V.381 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.379 Water bridges: B:T.378, B:T.378

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kopecny, D. et al., Plant ALDH10 family: identifying critical residues for substrate specificity and trapping a thiohemiacetal intermediate. J.Biol.Chem. (2013)

Release Date

2013-02-20

Peptides

Aminoaldehyde dehydrogenase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aminoaldehyde dehydrogenase 1